Flowering time markers
These flowering time markers were provided by Simon Griffiths at the John Innes Centre and were developed as part of the ADAPTAWHEAT project.
For more information on these markers see the embedded .pdf file at the bottom of this page.
Markers
| Marker name | Assay type | Gene/Locus | Chr | Mutation | Phenotype | +ve Controls | Sensitive/-ve controls | Adittional info | Reference |
|---|
| TaBradi2g14790 | KASP | EPS-D1 | 1D | Deletion | Earlier flowering under long days | Spark / Cadenza | Weebil, Rialto, Savanah, Paragon, Charger, Buster and Avalon | Linked with 1DL deletion but recombination possible | |
| TaELF3-1D-Kasp1 | KASP | Ta-ELF3 | 1D | SNP | Earlier flowering under long days | Savannah | Rialto | | Zikhali et al., 2014, 2015 |
| TaFT3-B1-Kasp1 | KASP | PpdB-2/Ta-FT3-1B | 1B | SNP or deletion | Short day specific effect (Spark x Rialto) / EPS effect (Avalon x Cadenza and Charger x Badger) | Spark (SNP), Avalon and Charger (deletion) | Rialto (SNP),Cadenza and Badger | | |
| TaTOE1-B1_KASP1 | KASP | Ppd-B3/TOE1 | 1B | SNP | | | See document for TOE1 gene structure and haplotypes | | |
Copy Number Assay Primers
| Call | Name | Sequence |
|---|
FT3B | WhtFT3BF | GATCCATTTACATCAACTGTTCCG |
| WhtFT3BR | tagaagcttaccagggtatagagg |
| WhtFT3P | FAM-TGGCAGGTGCTGAGCTAAGACCATCTG-TAMRA |
| | |
FT3D | WhtFT3DF | CACTCAGGATAGCCTACAACAAC |
| WhtFT3DR | gccaccgatatcaactcgc |
| WhtFT3P | FAM-TGGCAGGTGCTGAGCTAAGACCATCTG-TAMRA |
| | |
FT4A | WhtFT4af | GGAAAGCGCACGCTTAACC |
| WhtFT4ar | gtcccccgccccag |
| WhtFT4P | FAM-TGCCATACGAGAGCCCAAGCCC-TAMRA |
| | |
FT4B | WhtFT4bf | CGCTTAACTTATCTGAATTCCCTTG |
| WhtFT4br | cgtcccccgccccaa |
| WhtFT4P | FAM-TGCCATACGAGAGCCCAAGCCC-TAMRA |
| | |
FT4D | WhtFT4df | GAAAGCGCACGCTTAACAG |
| WhtFT4dr | gtcccccgccccag |
| WhtFT4P | FAM-TGCCATACGAGAGCCCAAGCCC-TAMRA |
| | |
FT5A | WhtFT5AF | TGTTAACTTGGTTGAATTTCTCTTTCAA |
| WhtFT5AR | cgagtgcaagtactcccttaga |
| WhtFT5P | FAM-AGATGCCCCAAGCCCAAGTCACC-TAMRA |
| | |
FT5B | WhtFT5BF | TGGTTGAATTTCTCTTTCACTTGG |
| WhtFT5BR | gtagggagtcatattgacgagaataaa |
| WhtFT5P | FAM-AGATGCCCCAAGCCCAAGTCACC-TAMRA |
| | |
FT5D | WhtFT5DF | GAGTTTCTCTTTGACTTAAAAAGATGC |
| WhtFT5DR | cgagaatatgaacatgttgcatctaa |
| WhtFT5P | FAM-AGATGCCCCAAGCCCAAGTCACC-TAMRA |
| | |
Ppd-B1 | Ppd-B1F | GCGTAAGTTACTATCTCTCATGGTGTATC |
| Ppd-B1R | tttgttttagtacccagtaccataccag |
| Ppd-B1P | FAM-CTGCTGCTTCAGTTCCTAGTTTCACTTGTGTCC-TAMRA |
| | |
Vrn-A1 | Vrn-A1F | GCAGCCCACTTTTGGTCTCTA |
| Vrn-A1R | tctgccctctcgcctgtt |
| Vrn-A1P | FAM-TGTGTTCGCTTTGGTTGTGCAGCA-TAMRA |
| | |
TaCO2 | TaCO2F | TGCTAACCGTGTGGCATCAC |
| TaCO2R | ggtacatagtgctgctgcatctg |
| TaCO2P | VIC-CATGAGCGTGTGCGTGTCTGCG-TAMRA |
Eps-D1 and TaELF3 KASP
| TaBradi2g14790 | Sequence | |
|---|
casTaBradi2g14790_KASP1_F | gaaggtgaccaagttcatgctCCTTGTCTCCGTCCCTG | Spark allele |
casTaBradi2g14790_KASP1_V | gaaggtcggagtcaacggattGACAGCTCCTCCCGAG | Rialto allele |
casTaBradi2g14790_KASP1_C | TCGGTAATGTCTTCAGTGTTTTA | |
| TaELF3 1D KASP1 | Sequence | |
|---|
TaELF3 1D Kasp1_F | gaaggtgaccaagttcatgctTGGAGACATGACGGGAACA | Savannah |
TaELF3 1D Kasp1_V | gaaggtcggagtcaacggattTGGAGACATGACGGGAACG | Rialto |
TaELF3 1D Kasp1_C | GGAAACCAGGCTTCACG | |
TaFT3-B1 KASP
| TaFT3-B1 | Sequence |
|---|
TaFT3-B1 Kasp1-F | gaaggtgaccaagttcatgctAACAACTAGTGGCAGCTTCA |
TaFT3-B1 Kasp1-V | gaaggtcggagtcaacggattACAACTAGTGGCAGCTTCG |
TaFT3-B1 Kasp1-C | GGAAACCAGGCTTCACG |
TOE1 KASP assays
| Primer | Sequence |
|---|
TaTOE1-B1_KASP1_F | gaaggtgaccaagttcatgctCTCCACCTCCGCCGA |
TaTOE1-B1_KASP1_V | gaaggtcggagtcaacggattCTCCACCTCCGCCGC |
TaTOE1-B1_KASP1_C | CGGGGAACAGCTCTTGG |
| Primer | Sequence |
|---|
TaTOE1-B1_KASP2_F | gaaggtgaccaagttcatgctGCTGAAGGTAACAACACGATG |
TaTOE1-B1_KASP2_V | gaaggtcggagtcaacggattTGCTGAAGGTAACAACATGATG |
TaTOE1-B1_KASP2_C | GCCAAATCACAGATGCAA |
Additional information
